compare_populations: compare_populations

In alex-wenzel/ChromaSC-R: Plots gene set enrichment along a single cell RNA-seq linear pseudotime trajectory

Description

Compare different populations along the same pseudotime trajectory

Usage

compare_populations(pops1.pt, pops2.pt, escores, gene_set_name,
  region.start = NA, region.end = NA, window.size = NA,
  step.size = NA)

Arguments

pops1.pt	A named vector of pseudotime values forming the first group to test
pops2.pt	A named vector of pseudotime values forming the second group to test
escores	The gene set by cell matrix of enrichment z-scores produced by 'run_enrichment()'
gene_set_name	The name of the gene set to test
region.start	Optional - start of pseudotime region to compare (the smallest pseudotime value)
region.end	Optional - end of pseudotime region to compare (the largest pseudotime value)
window.size	Optional - if region.start==region.end==NA, then test consecutive windows of this size and report statistics and corrected pvalues
step.size	Optional - If scanning for significance, fraction of pseudotime to move the window on each test

alex-wenzel/ChromaSC-R documentation built on Nov. 1, 2019, 9:09 p.m.